• Title, Summary, Keyword: unrecorded bacterial species

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A report of 11 unrecorded bacterial species in Korea, isolated from Hapcheonho Lake and Jinyangho Lake

  • Lee, Jae Kook;Yi, Hana
    • Journal of Species Research
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    • v.6 no.3
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    • pp.207-213
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    • 2017
  • In order to investigate the indigenous prokaryotic species diversity of the Nakdong River system in Korea, fresh water samples from Hapcheonho Lake and Jinyangho Lake were analyzed for bacterial taxonomic diversity. The isolated bacterial strains were identified based on 16S rRNA gene sequences, and those exhibiting at least 98.7% sequence similarity with known bacterial species, but never reported in Korea, were selected as unrecorded species. Eleven unrecorded bacterial species were discovered in this study. The isolates were identified as Aquabacterium citratiphilum, Clostridium ghonii, Curvibacter delicates, Deinococcus depolymerans, Eubacterium moniliforme, Flavobacterium nitrogenifigens, Kineosporia mesophila, Luteibacter jiangsuensis, Microbacterium terricola, Rhizobium larrymoorei, and Sediminicoccus rosea belonging to the phyla Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria and Deinococcus-Thermus. The selected isolates were further characterized for cellular and colonial morphologies, growth conditions, physiological properties, and enzymatic activities. Descriptive information of these previously unrecorded species is also provided.

A report of 28 unrecorded bacterial species, phylum Bacteroidetes, in Korea

  • Maeng, Soohyun;Baek, Chaeyun;Bae, Jin-Woo;Cha, Chang-Jun;Jahng, Kwang-Yeop;Joh, Ki-seong;Kim, Wonyong;Seong, Chi Nam;Lee, Soon Dong;Cho, Jang-Cheon;Yi, Hana
    • Journal of Species Research
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    • v.7 no.2
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    • pp.104-113
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    • 2018
  • In order to investigate indigenous prokaryotic species diversity in Korea, various environmental samples from diverse ecosystems were examined. Isolated bacterial strains were identified based on 16S rRNA gene sequences, and those exhibiting at least 98.7% sequence similarity with known bacterial species, but not reported in Korea, were selected as unrecorded species. 28 unrecorded bacterial species belonging to the phylum Bacteroidetes were discovered from various habitats including wastewater, freshwater, freshwater sediment, wet land, reclaimed land, plant root, bird feces, seawater, sea sand, tidal flat sediment, a scallop, marine algae, and seaweed. The unrecorded species were assigned to 18 different genera in five families: Flavobacterium, Epilithonimonas, Dokdonia, Gillisia, Flavicella, Chryseobacterium, Algibacter, Aquimarina, Lacinutrix, Gaetbulibacter, Cellulophaga, Tenacibaculum, and Maribacter of Flavobacteriaceae, Dyadobacter of Cytophagaceae, Draconibacterium of Draconibacterium_f, Sunxiuqinia of Prolixibacteraceae, and Fulvivirga of Fulvivirga_f. The selected isolates were subjected to further taxonomic characterization including analysis of Gram reaction, cellular and colonial morphology, biochemical activities, and phylogenetic trees. Descriptive information of the 28 unrecorded species is provided.

A report of 10 unrecorded bacterial species of Korea, belonging to the phylum Firmicutes

  • Kim, Eunji;Choi, Sungmi;Bae, Jin-Woo;Cha, Chang-Jun;Im, Wan-Taek;Jahng, Kwang-Yeop;Joh, Ki-seong;Yi, Hana
    • Journal of Species Research
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    • v.5 no.2
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    • pp.235-240
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    • 2016
  • To investigate the indigenous prokaryotic species diversity in Korea, various environmental samples from diverse ecosystems were examined taxonomically. The isolated bacterial strains were identified based on 16S rRNA gene sequences, and those exhibiting at least 98.7% sequence similarity with known bacterial species but never reported in Korea were selected as unrecorded species. As an outcome of this study, 10 unrecorded bacterial species belonging to the phylum Firmicutes were discovered from various sources such as soil, tidal flat, fresh water, sea water, kimchi and gut of Fulvia mutica. The unrecorded species were assigned to 7 different genera of 5 families, namely Bacillus and Ornithinibacillus of Bacillaceae, Exiguobacterium of Exiguobacteriaceae, Brevibacillus and Paenibacillus of Paenibacillaceae, Staphylococcus of Staphylococcaceae, and Lactococcus of Streptococcaceae. The selected isolates were subjected to further taxonomic characterization including the analysis of Gram reaction, cellular and colonial morphology, biochemical activities, and phylogenetic trees. The descriptive information on the 10 unrecorded species are provided.

Report on 24 unrecorded bacterial species of Korea belonging to the phylum Firmicutes

  • Han, Ji-Hye;Joung, Yochan;Kim, Tae-Su;Bae, Jin-Woo;Cha, Chang-Jun;Chun, Jongsik;Im, Wan-Taek;Jahng, Kwang Yeop;Jeon, Che Ok;Joh, Kiseong;Seong, Chi Nam;Yoon, Jung-Hoon;Cho, Jang-Cheon;Kim, Seung Bum
    • Journal of Species Research
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    • v.4 no.2
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    • pp.127-136
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    • 2015
  • As an outcome of the study on the bacterial species diversity in Korea, we report 24 unrecorded bacterial species of Korea belonging to the phylum Firmicutes. The unrecorded species excavated through this study were assigned to 12 different genera of 7 families, namely Bacillus, Halobacillus, Lysinibacillus and Thalassobacillus of Bacillaceae, Brevibacillus and Paenibacillus of Paenibacillaceae, Viridibacillus of Planococcaceae, Salinicoccus and Staphylococcus of Staphylococcaceae, Enterococcus of Enterococcaceae, Lactobacillus of Lactobacillaceae, and Lactococcus of Streptococcaceae, respectively. The bacterial isolates were obtained from various ecosystems in Korea. The isolates were identified based on 16S rRNA gene sequences, and those exhibiting at least 99% sequence similarity with known bacterial species but never reported in Korea were selected as unrecorded species. The selected isolates were subjected to further taxonomic characterization including the analysis of cell shape and fine structure using electron microscope, colony color and shapes, enzyme activities and carbon source utilization. The descriptive information on the 24 unrecorded species are provided.

Report of 29 unrecorded bacterial species from the phylum Proteobacteria

  • Nam, Yoon-Jong;Beak, Kiwoon;Han, Ji-Hye;Park, Sanghwa;Lee, Mi-Hwa
    • Journal of Species Research
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    • v.7 no.1
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    • pp.60-72
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    • 2018
  • Our study aimed to discover indigenous prokaryotic species in Korea. A total of 29 bacterial species in the phylum Proteobacteria were isolated from freshwater and sediment of rivers and brackish zones in Korea. From the high 16S rRNA gene sequence similarity (${\geq}98.8%$) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to an independent and predefined bacterial species. To our knowledge, there is no official report or publication that has previously described these 29 species in Korea. Specifically, we identified 10, 12, and seven species of eight, 12, and seven genera that belong to classes Alphaproteobacteria, Betaproteobacteria, and Gammaproteobacteria, respectively; all are reported as previously unrecorded bacterial species in Korea. The Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs for each are also described.

A report of 22 unrecorded bacterial species in Korea, isolated from the North Han River basin in 2017

  • Joung, Yochan;Park, Miri;Jang, Hye-Jin;Jung, Ilsuk;Cho, Jang-Cheon
    • Journal of Species Research
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    • v.7 no.3
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    • pp.193-201
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    • 2018
  • Culturable bacterial diversity was investigated using freshwater and sediment samples collected from the North Han River basin in 2017, as a part of the research program 'Survey of freshwater organisms and specimen collection'. Over a thousand bacterial strains were isolated from the samples and identified based on 16S rRNA gene sequences. Among the bacterial isolates, 22 strains showing higher than 98.7% sequence similarity with validly published bacterial species, but not reported in Korea, were classified as unrecorded species in Korea. The 22 bacterial strains were phylogenetically diverse and assigned to 6 classes, 11 orders, 15 families, and 21 different genera. At the generic level, the unreported species were affiliated with Flavobacterium of the class Flavobacteria, Flexibacter of the class Cytophagia, Blastomonas, Brevundimonas, Elstera, Rhizobium, Roseomonas, Sphingomonas, and Xanthobacter of the class Alphaproteobacteria, Albidiferax, Cupriavidus, Curvibacter, Ferribacterium, Hydrogenophaga, Iodobacter, Limnohabitans, Polaromonas, Undibacterium, and Variovorax of the class Betaproteobacteria, Pseudomonas of the class Gammaproteobacteria, and Arcobacter of the class Epsilonproteobacteria. The unreported bacterial species were further characterized by examining Gram reaction, colonial and cellular morphology, and biochemical properties. The detailed descriptions of 22 strains of the unreported bacterial species are also provided.

A report on 17 unrecorded bacterial species in Korea isolated from Lakes Soyang and Chungju in 2016

  • Jeon, Hyoung Tae;Joung, Yochan;Kim, Suhyun;Lim, Yeonjung;Cho, Jang-Cheon
    • Journal of Species Research
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    • v.6 no.2
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    • pp.163-170
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    • 2017
  • As a part of the research program 'Survey of freshwater organisms and specimen collection', freshwater samples were collected from Lakes Soyang and Chungju in 2016. Hundreds of bacterial strains were isolated from the samples and were identified based on 16S rRNA gene sequences. Among the bacterial isolates, strains showing higher than 98.7% sequence similarity with validly published bacterial species not reported in Korea were selected as unrecorded bacterial species. Based on 16S rRNA gene sequence similarity, 17 strains were identified as unrecorded bacterial species in Korea. The 17 bacterial strains were phylogenetically diverse and belonged to four phyla, seven classes, 13 orders, 14 families, and 16 genera. At generic level, the unreported species were affiliated with Caulobacter, Paracoccus, and Mesorhizobium of the class Alphaproteobacteria, Deefgea, Undibacterium, Chitinimonas, Inhella, and Sphaerotilus of the class Betaproteobacteria, Vibrio and Cellvibrio of the class Gammaproteobacteria, Sanguibacter and Clavibacter of the phylum Actinobacteria, Lactococcus of the phylum Firmicutes, Deinococcus of the class Deinococci, and Chryseobacterium and Flavobacterium of the phylum Bacteroidetes. The unreported species were further characterized by examining Gram reaction, colony and cell morphology, biochemical properties, and phylogenetic position. The detailed description of the 17 unreported species are also provided.

Description of ten unrecorded bacterial species isolated from Ostrea denselamellosa and Eriocheir japonica from the Seomjin River

  • Choi, Ahyoung;Han, Ji-Hey;Kim, Eui-Jin;Cho, Ja Young;Hwang, Sun-I
    • Korean Journal of Environmental Biology
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    • v.37 no.4
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    • pp.592-599
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    • 2019
  • Ostrea denselamellosa and Eriocheir japonica samples were collected from the Seomjin River in 2019 as part of the "Research of Host-Associated Bacteria" research program. Almost 200 bacterial strains were isolated from the O. denselamellosa and E. japonica samples and subsequently identified by 16S rRNA gene sequencing. Among the bacterial isolates, ten strains possessed greater than 98.7% sequence similarity with published bacterial species that had not previously been recorded in Korea. These species were phylogenetically diverse, belonging to three phyla, four classes, seven orders, and eight genera. At the genus and class level, the previously unrecorded species belonged to Pseudoalteromonas, Aliivibrio, Rheinheimera, Leucothrix, and Shewanella of the class Gamma-proteobacteria, Olleya of the class Flavobacteriia, Algoriphagus of the class Cytophagia, and Lactococcus of the class Bacilli. The previously unrecorded species were further characterized by examining their Gram staining, colony and cell morphology, biochemical properties, and phylogenetic positions.

A report of 26 unrecorded bacterial species in Korea, isolated from urban streams of the Han River watershed in 2018

  • Joung, Yochan;Jang, Hye-Jin;Kim, Myeong Woon;Hwang, Juchan;Song, Jaeho;Cho, Jang-Cheon
    • Journal of Species Research
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    • v.8 no.3
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    • pp.249-258
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    • 2019
  • Owing to a distinct environmental regime and anthropogenic effects, freshwater bacterial communities of urban streams are considered to be different from those of large freshwater lakes and rivers. To obtain unrecorded, freshwater bacterial species in Korea, water and sediment samples were collected from various urban streams of the Han River watershed in 2018. After plating the freshwater samples on R2A agar, approximately 1000 bacterial strains were isolated from the samples as single colonies and identified using 16S rRNA gene sequence analyses. A total of 26 strains, with >98.7% 16S rRNA gene sequence similarity with validly published bacterial species but not reported in Korea, were determined to be unrecorded bacterial species in Korea. The unrecorded bacterial strains were phylogenetically diverse and belonged to four phyla, six classes, 12 orders, 16 families, and 21 genera. At the generic level, the unreported species were assigned to Nocardioides, Streptomyces, Microbacterium, Kitasatospora, Herbiconiux, Corynebacterium, and Microbacterium of the class Actinobacteria; Paenibacillus and Bacillus of the class Bacilli; Caulobacter, Methylobacterium, Novosphingobium, and Porphyrobacter of the class Alphaproteobacteria; Aquabacterium, Comamonas, Hydrogenophaga, Laribacter, Rivicola, Polynucleobacter, and Vogesella of the class Betaproteobacteria; Arcobacter of the class Epsilonproteobacteria; and Flavobacterium of the class Flavobacteriia. The details of the 26 unreported species, including Gram reaction, colony and cell morphology, biochemical properties, and phylogenetic position are also provided in the strain descriptions.

A report of 35 unreported bacterial species in Korea, belonging to the phylum Firmicutes

  • Baek, Min-gyung;Kim, Wonyong;Cha, Chang-Jun;Joh, Kiseong;Kim, Seung-Bum;Kim, Myung Kyum;Seong, Chi-Nam;Yi, Hana
    • Journal of Species Research
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    • v.8 no.4
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    • pp.337-350
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    • 2019
  • In an investigation of indigenous prokaryotic species in Korea, a total of 35 bacterial strains assigned to the phylum Firmicutes were isolated from diverse habitats including natural and artificial environments. Based on their high 16S rRNA gene sequence similarity (>98.7%) and formation of robust phylogenetic clades with species of validly published names, the isolates were identified as 35 species belonging to the orders Bacillales (the family Bacillaceae, Paenibacillaceae, Planococcaceae, and Staphylococcaceae) and Lactobacillales (Aerococcaceae, Enterococcaceae, Lactobacillaceae, Leuconostocaceae, and Streptococcaceae). Since these 35 species in Korean environments has not been reported in any official report, we identified them as unrecorded bacterial species and investigated them taxonomically. The newly found unrecorded species belong to 20 species in the order Bacillales and 15 species in the order Lactobacillales. The morphological, cultural, physiological, and biochemical properties of the isolates were examined and the descriptive information of the 35 previously unrecorded species is provided here.